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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATTGGAAGCAACGGCGAAAGCGGTTCAACCAGTGATTGAGTTGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaactttcctcatttgaactggagcctatactaaatgtaaaattttgaacttaaaaaatctgatattaaattaggggtggatatatggtctgtt...

Basic information

species Glycine max
transcript GLYMA09G07240.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G07240.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 5'ss of exon 15
CTATTGGAAGCAACGGCGAAAGCGGTTCAACCAGTGATTGAGTTGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaactttcctcatttgaactggagcctatactaaatgtaaaattttgaacttaaaaaatctgatattaaattaggggtggatatatggtctgtt--
||  |||||||||| || | ||| |||||||  ||  | || | ||||||||||||| | |  || |||||||| ||||||||||||||||||||||| ||     ||  |||  |         | |  | ||| | ||   |  |||  |||||  |  | |  | |          |   || ||  |    
CTTCTGGAAGCAACAGCTAGAGCAGTTCAACTTGTACTGGAATGGGGAGAATCTGGATTGGCTGTTGCAGATGGCCTTTCAAACCTGTTAAAGgtaaa-aattgccccctattaaatacattcggtctggtgaatttgaagcctgaaacggaaaaacacacacac-acacacactacaaactcatcgtaggagtc
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|208207102|gb|GE008409.1|GE008409
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|51335908|gb|CO979774.1|CO979774
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|17402189|gb|BM178971.1|BM178971
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|209718354|gb|BW666203.1|BW666203
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|22931306|gb|BU548445.1|BU548445
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|151407233|gb|EV277048.1|EV277048
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGCCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|8669311|gb|BE190418.1|BE190418
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|13479059|gb|BG508402.1|BG508402
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|209708435|gb|BW665410.1|BW665410
EST:     CTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: CTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|192305786|gb|FG995728.1|FG995728
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGTCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|209715722|gb|BW677241.1|BW677241
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTCCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC
EST: gi|192305785|gb|FG995727.1|FG995727
EST:     TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAG                         TGTCGCCTACCAGCTACAATCAGATGTCTTTCTCATCCAAGTGCACATGTC
genomic: TGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaac ... gcacatgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTATTGGAAGCAACGGCGAAAGCGGTTCAACCAGTGATTGAGTTGGGAGAATCTGGACTTGGAGTGGCAGATGGGCTTTCAAACCTGTTAAAGgtaaacaaactttcctcatttgaactggagcctatactaaatgtaaaattttgaacttaaaaaatctgatattaaattaggggtggatatatggtctgtt

- - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggggtgg